
#######################################################
#                                                     #
#                        LGA                          #
#                  ---------------                    #
#                                                     #
#               Local-Global Alignment                #
#        A Method for Finding 3-D Similarities        #
#               in Protein Structures                 #
#                                                     #
#                  --------------- 06/2006            #
#                                                     #
#      Adam Zemla (adamz@llnl.gov)                    #
#      Lawrence Livermore National Laboratory, CA     #
#                                                     #
#######################################################

# Molecule1: number of CA atoms   36 (  178),  selected   36 , name T0335TS757_5-D1
# Molecule2: number of CA atoms   36 (  584),  selected   36 , name T0335_D1.pdb
# PARAMETERS: T0335TS757_5-D1.T0335_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    A       5      -       -           -
LGA    K       6      A       5          3.590
LGA    I       7      K       6          2.693
LGA    A       8      I       7          1.420
LGA    R       9      A       8          1.078
LGA    I      10      R       9          2.032
LGA    N      11      I      10          1.063
LGA    E      12      N      11          1.396
LGA    L      13      E      12          2.356
LGA    A      14      L      13          2.190
LGA    A      15      A      14          0.797
LGA    K      16      A      15          1.711
LGA    A      17      K      16          2.075
LGA    K      18      A      17          2.477
LGA    A      19      K      18          2.118
LGA    G      20      A      19          1.670
LGA    V      21      G      20          1.539
LGA    I      22      V      21          1.726
LGA    T      23      -       -           -
LGA    E      24      -       -           -
LGA    E      25      -       -           -
LGA    E      26      I      22          4.452
LGA    K      27      T      23          2.330
LGA    A      28      E      24          1.700
LGA    E      29      E      25          1.712
LGA    Q      30      E      26          1.829
LGA    Q      31      K      27          1.194
LGA    K      32      A      28          0.450
LGA    L      33      E      29          0.907
LGA    R      34      Q      30          0.985
LGA    Q      35      Q      31          0.691
LGA    E      36      K      32          1.669
LGA    Y      37      L      33          2.209
LGA    L      38      R      34          2.432
LGA    K      39      Q      35          2.620
LGA    G      40      E      36          3.339
LGA    -       -      Y      37           -
LGA    -       -      L      38           -
LGA    -       -      K      39           -
LGA    -       -      G      40           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   36   36    5.0     32    2.07     9.38     77.963     1.473

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.092654 * X  +   0.959448 * Y  +   0.266223 * Z  +  -4.661644
  Y_new =  -0.794844 * X  +   0.089765 * Y  +  -0.600138 * Z  +  -8.199547
  Z_new =  -0.599699 * X  +  -0.267210 * Y  +   0.754294 * Z  +   0.114308 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.340458    2.801135  [ DEG:   -19.5068    160.4932 ]
  Theta =   0.643125    2.498468  [ DEG:    36.8483    143.1517 ]
  Phi   =  -1.686841    1.454751  [ DEG:   -96.6489     83.3511 ]
 
# END of job
REMARK  ---------------------------------------------------------- 
REMARK   Citing LGA: 
REMARK   Zemla A., LGA - a Method for Finding 3D Similarities in  
REMARK   Protein Structures, Nucleic Acids Research, 2003, V. 31, 
REMARK   No. 13, pp. 3370-3374. 
REMARK  ---------------------------------------------------------- 
REMARK   Superimposed MOLECULES (1=>2)   Output: 1 molecule      
REMARK     1: T0335TS757_5-D1                               
REMARK     2: T0335_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0335TS757_5-D1.T0335_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   36   36   5.0   32   2.07    9.38  77.963
REMARK  ---------------------------------------------------------- 
MOLECULE T0335TS757_5-D1
PFRMAT TS
TARGET T0335
MODEL  5
PARENT N/A
ATOM     31  N   ALA     5      -3.514 -12.824  -5.560  1.00 10.00    
ATOM     32  CA  ALA     5      -3.848 -11.453  -5.906  1.00 10.00    
ATOM     33  C   ALA     5      -2.737 -10.867  -6.779  1.00 10.00    
ATOM     34  O   ALA     5      -1.614 -11.370  -6.782  1.00 10.00    
ATOM     35  CB  ALA     5      -4.072 -10.644  -4.626  1.00 10.00    
ATOM     36  N   LYS     6      -3.088  -9.812  -7.499  1.00 10.00    
ATOM     37  CA  LYS     6      -2.135  -9.152  -8.375  1.00 10.00    
ATOM     38  C   LYS     6      -1.170  -8.315  -7.532  1.00 10.00    
ATOM     39  O   LYS     6      -1.265  -8.298  -6.306  1.00 10.00    
ATOM     40  CB  LYS     6      -2.865  -8.348  -9.453  1.00 10.00    
ATOM     45  N   ILE     7      -0.264  -7.641  -8.224  1.00 10.00    
ATOM     46  CA  ILE     7       0.718  -6.804  -7.554  1.00 10.00    
ATOM     47  C   ILE     7       0.013  -5.599  -6.930  1.00 10.00    
ATOM     48  O   ILE     7       0.338  -5.194  -5.815  1.00 10.00    
ATOM     49  CB  ILE     7       1.523  -5.041  -9.261  1.00 10.00    
ATOM     53  N   ALA     8      -0.939  -5.058  -7.676  1.00 10.00    
ATOM     54  CA  ALA     8      -1.694  -3.907  -7.209  1.00 10.00    
ATOM     55  C   ALA     8      -2.677  -4.352  -6.125  1.00 10.00    
ATOM     56  O   ALA     8      -3.195  -3.527  -5.375  1.00 10.00    
ATOM     57  CB  ALA     8      -2.395  -3.240  -8.395  1.00 10.00    
ATOM     58  N   ARG     9      -2.904  -5.657  -6.078  1.00 10.00    
ATOM     59  CA  ARG     9      -3.817  -6.222  -5.099  1.00 10.00    
ATOM     60  C   ARG     9      -3.098  -6.433  -3.764  1.00 10.00    
ATOM     61  O   ARG     9      -3.717  -6.360  -2.703  1.00 10.00    
ATOM     62  CB  ARG     9      -4.384  -7.558  -5.581  1.00 10.00    
ATOM     69  N   ILE    10      -1.803  -6.692  -3.861  1.00 10.00    
ATOM     70  CA  ILE    10      -0.994  -6.915  -2.674  1.00 10.00    
ATOM     71  C   ILE    10      -1.029  -5.662  -1.796  1.00 10.00    
ATOM     72  O   ILE    10      -1.200  -5.756  -0.582  1.00 10.00    
ATOM     73  CB  ILE    10       1.421  -7.235  -1.818  1.00 10.00    
ATOM     77  N   ASN    11      -0.863  -4.519  -2.445  1.00 10.00    
ATOM     78  CA  ASN    11      -0.873  -3.250  -1.739  1.00 10.00    
ATOM     79  C   ASN    11      -2.320  -2.803  -1.522  1.00 10.00    
ATOM     80  O   ASN    11      -2.570  -1.785  -0.879  1.00 10.00    
ATOM     81  CB  ASN    11      -0.159  -2.164  -2.547  1.00 10.00    
ATOM     85  N   GLU    12      -3.236  -3.586  -2.072  1.00 10.00    
ATOM     86  CA  GLU    12      -4.652  -3.285  -1.946  1.00 10.00    
ATOM     87  C   GLU    12      -5.129  -3.560  -0.518  1.00 10.00    
ATOM     88  O   GLU    12      -6.103  -2.964  -0.060  1.00 10.00    
ATOM     89  CB  GLU    12      -5.475  -4.079  -2.962  1.00 10.00    
ATOM     94  N   LEU    13      -4.421  -4.462   0.145  1.00 10.00    
ATOM     95  CA  LEU    13      -4.760  -4.824   1.510  1.00 10.00    
ATOM     96  C   LEU    13      -4.479  -3.636   2.432  1.00 10.00    
ATOM     97  O   LEU    13      -5.228  -3.386   3.375  1.00 10.00    
ATOM     98  CB  LEU    13      -4.033  -6.106   1.921  1.00 10.00    
ATOM    102  N   ALA    14      -3.396  -2.935   2.127  1.00 10.00    
ATOM    103  CA  ALA    14      -3.007  -1.779   2.918  1.00 10.00    
ATOM    104  C   ALA    14      -4.011  -0.648   2.688  1.00 10.00    
ATOM    105  O   ALA    14      -4.500  -0.045   3.643  1.00 10.00    
ATOM    106  CB  ALA    14      -1.577  -1.371   2.555  1.00 10.00    
ATOM    107  N   ALA    15      -4.290  -0.395   1.419  1.00 10.00    
ATOM    108  CA  ALA    15      -5.228   0.653   1.052  1.00 10.00    
ATOM    109  C   ALA    15      -6.615   0.301   1.592  1.00 10.00    
ATOM    110  O   ALA    15      -7.390   1.187   1.948  1.00 10.00    
ATOM    111  CB  ALA    15      -5.223   0.834  -0.467  1.00 10.00    
ATOM    112  N   LYS    16      -6.887  -0.996   1.636  1.00 10.00    
ATOM    113  CA  LYS    16      -8.168  -1.476   2.126  1.00 10.00    
ATOM    114  C   LYS    16      -8.258  -1.226   3.633  1.00 10.00    
ATOM    115  O   LYS    16      -9.312  -0.844   4.141  1.00 10.00    
ATOM    116  CB  LYS    16      -8.378  -2.939   1.732  1.00 10.00    
ATOM    121  N   ALA    17      -7.139  -1.451   4.306  1.00 10.00    
ATOM    122  CA  ALA    17      -7.079  -1.255   5.745  1.00 10.00    
ATOM    123  C   ALA    17      -7.112   0.243   6.053  1.00 10.00    
ATOM    124  O   ALA    17      -7.501   0.646   7.148  1.00 10.00    
ATOM    125  CB  ALA    17      -5.826  -1.938   6.300  1.00 10.00    
ATOM    126  N   LYS    18      -6.698   1.026   5.068  1.00 10.00    
ATOM    127  CA  LYS    18      -6.676   2.471   5.220  1.00 10.00    
ATOM    128  C   LYS    18      -8.041   3.041   4.832  1.00 10.00    
ATOM    129  O   LYS    18      -8.373   4.169   5.197  1.00 10.00    
ATOM    130  CB  LYS    18      -5.511   3.075   4.433  1.00 10.00    
ATOM    135  N   ALA    19      -8.796   2.238   4.098  1.00 10.00    
ATOM    136  CA  ALA    19     -10.117   2.648   3.656  1.00 10.00    
ATOM    137  C   ALA    19     -11.143   2.299   4.737  1.00 10.00    
ATOM    138  O   ALA    19     -12.268   2.795   4.713  1.00 10.00    
ATOM    139  CB  ALA    19     -10.437   1.987   2.314  1.00 10.00    
ATOM    140  N   GLY    20     -10.718   1.446   5.657  1.00 10.00    
ATOM    141  CA  GLY    20     -11.585   1.024   6.744  1.00 10.00    
ATOM    142  C   GLY    20     -11.418   1.933   7.963  1.00 10.00    
ATOM    143  O   GLY    20     -11.186   3.132   7.821  1.00 10.00    
ATOM    144  N   VAL    21     -11.542   1.327   9.135  1.00 10.00    
ATOM    145  CA  VAL    21     -11.408   2.066  10.378  1.00 10.00    
ATOM    146  C   VAL    21     -10.027   1.797  10.980  1.00 10.00    
ATOM    147  O   VAL    21      -9.792   0.735  11.554  1.00 10.00    
ATOM    148  CB  VAL    21     -12.839   0.129  11.312  1.00 10.00    
ATOM    151  N   ILE    22      -9.150   2.779  10.829  1.00 10.00    
ATOM    152  CA  ILE    22      -7.799   2.661  11.352  1.00 10.00    
ATOM    153  C   ILE    22      -7.476   3.892  12.200  1.00 10.00    
ATOM    154  O   ILE    22      -7.658   5.024  11.753  1.00 10.00    
ATOM    155  CB  ILE    22      -6.875   0.904   9.701  1.00 10.00    
ATOM    159  N   THR    23      -7.001   3.631  13.408  1.00 10.00    
ATOM    160  CA  THR    23      -6.651   4.703  14.324  1.00 10.00    
ATOM    161  C   THR    23      -5.886   5.805  13.586  1.00 10.00    
ATOM    162  O   THR    23      -5.229   5.542  12.580  1.00 10.00    
ATOM    163  CB  THR    23      -6.206   4.799  16.889  1.00 10.00    
ATOM    166  N   GLU    24      -5.997   7.015  14.116  1.00 10.00    
ATOM    167  CA  GLU    24      -5.323   8.157  13.520  1.00 10.00    
ATOM    168  C   GLU    24      -3.860   7.818  13.230  1.00 10.00    
ATOM    169  O   GLU    24      -3.410   7.921  12.090  1.00 10.00    
ATOM    170  CB  GLU    24      -5.434   9.389  14.421  1.00 10.00    
ATOM    175  N   GLU    25      -3.158   7.421  14.281  1.00 10.00    
ATOM    176  CA  GLU    25      -1.755   7.066  14.153  1.00 10.00    
ATOM    177  C   GLU    25      -1.598   5.831  13.265  1.00 10.00    
ATOM    178  O   GLU    25      -0.578   5.667  12.597  1.00 10.00    
ATOM    179  CB  GLU    25      -1.119   6.838  15.527  1.00 10.00    
ATOM    184  N   GLU    26      -2.624   4.993  13.284  1.00 10.00    
ATOM    185  CA  GLU    26      -2.613   3.777  12.488  1.00 10.00    
ATOM    186  C   GLU    26      -2.686   4.118  10.999  1.00 10.00    
ATOM    187  O   GLU    26      -2.194   3.363  10.161  1.00 10.00    
ATOM    188  CB  GLU    26      -3.756   2.845  12.895  1.00 10.00    
ATOM    193  N   LYS    27      -3.304   5.255  10.713  1.00 10.00    
ATOM    194  CA  LYS    27      -3.448   5.704   9.339  1.00 10.00    
ATOM    195  C   LYS    27      -2.090   6.183   8.820  1.00 10.00    
ATOM    196  O   LYS    27      -1.782   6.022   7.640  1.00 10.00    
ATOM    197  CB  LYS    27      -4.551   6.758   9.233  1.00 10.00    
ATOM    202  N   ALA    28      -1.316   6.762   9.726  1.00 10.00    
ATOM    203  CA  ALA    28       0.001   7.264   9.373  1.00 10.00    
ATOM    204  C   ALA    28       0.937   6.085   9.104  1.00 10.00    
ATOM    205  O   ALA    28       1.751   6.131   8.182  1.00 10.00    
ATOM    206  CB  ALA    28       0.517   8.173  10.492  1.00 10.00    
ATOM    207  N   GLU    29       0.792   5.055   9.925  1.00 10.00    
ATOM    208  CA  GLU    29       1.614   3.865   9.786  1.00 10.00    
ATOM    209  C   GLU    29       1.168   3.049   8.571  1.00 10.00    
ATOM    210  O   GLU    29       1.982   2.389   7.929  1.00 10.00    
ATOM    211  CB  GLU    29       1.574   3.019  11.060  1.00 10.00    
ATOM    216  N   GLN    30      -0.126   3.123   8.292  1.00 10.00    
ATOM    217  CA  GLN    30      -0.691   2.399   7.166  1.00 10.00    
ATOM    218  C   GLN    30      -0.307   3.081   5.851  1.00 10.00    
ATOM    219  O   GLN    30      -0.209   2.427   4.814  1.00 10.00    
ATOM    220  CB  GLN    30      -2.210   2.279   7.298  1.00 10.00    
ATOM    225  N   GLN    31      -0.100   4.387   5.937  1.00 10.00    
ATOM    226  CA  GLN    31       0.272   5.164   4.767  1.00 10.00    
ATOM    227  C   GLN    31       1.746   4.939   4.426  1.00 10.00    
ATOM    228  O   GLN    31       2.117   4.908   3.253  1.00 10.00    
ATOM    229  CB  GLN    31      -0.021   6.651   4.981  1.00 10.00    
ATOM    234  N   LYS    32       2.546   4.786   5.471  1.00 10.00    
ATOM    235  CA  LYS    32       3.971   4.564   5.296  1.00 10.00    
ATOM    236  C   LYS    32       4.196   3.182   4.679  1.00 10.00    
ATOM    237  O   LYS    32       5.075   3.010   3.837  1.00 10.00    
ATOM    238  CB  LYS    32       4.713   4.776   6.618  1.00 10.00    
ATOM    243  N   LEU    33       3.386   2.233   5.126  1.00 10.00    
ATOM    244  CA  LEU    33       3.487   0.870   4.628  1.00 10.00    
ATOM    245  C   LEU    33       2.845   0.790   3.241  1.00 10.00    
ATOM    246  O   LEU    33       3.323   0.061   2.375  1.00 10.00    
ATOM    247  CB  LEU    33       2.892  -0.113   5.638  1.00 10.00    
ATOM    251  N   ARG    34       1.772   1.551   3.076  1.00 10.00    
ATOM    252  CA  ARG    34       1.061   1.574   1.809  1.00 10.00    
ATOM    253  C   ARG    34       1.933   2.208   0.722  1.00 10.00    
ATOM    254  O   ARG    34       1.847   1.831  -0.445  1.00 10.00    
ATOM    255  CB  ARG    34      -0.246   2.360   1.926  1.00 10.00    
ATOM    262  N   GLN    35       2.752   3.159   1.146  1.00 10.00    
ATOM    263  CA  GLN    35       3.638   3.849   0.223  1.00 10.00    
ATOM    264  C   GLN    35       4.929   3.050   0.031  1.00 10.00    
ATOM    265  O   GLN    35       5.456   2.975  -1.078  1.00 10.00    
ATOM    266  CB  GLN    35       3.938   5.268   0.709  1.00 10.00    
ATOM    271  N   GLU    36       5.400   2.474   1.127  1.00 10.00    
ATOM    272  CA  GLU    36       6.619   1.684   1.092  1.00 10.00    
ATOM    273  C   GLU    36       6.428   0.453   0.203  1.00 10.00    
ATOM    274  O   GLU    36       7.133   0.287  -0.791  1.00 10.00    
ATOM    275  CB  GLU    36       7.052   1.280   2.503  1.00 10.00    
ATOM    280  N   TYR    37       5.472  -0.377   0.594  1.00 10.00    
ATOM    281  CA  TYR    37       5.181  -1.587  -0.156  1.00 10.00    
ATOM    282  C   TYR    37       4.423  -1.195  -1.426  1.00 10.00    
ATOM    283  O   TYR    37       4.460  -1.915  -2.423  1.00 10.00    
ATOM    284  CB  TYR    37       4.288  -2.439   0.749  1.00 10.00    
ATOM    292  N   LEU    38       3.753  -0.054  -1.349  1.00 10.00    
ATOM    293  CA  LEU    38       2.988   0.442  -2.479  1.00 10.00    
ATOM    294  C   LEU    38       3.945   0.812  -3.615  1.00 10.00    
ATOM    295  O   LEU    38       3.601   0.685  -4.789  1.00 10.00    
ATOM    296  CB  LEU    38       2.075   1.592  -2.046  1.00 10.00    
ATOM    300  N   LYS    39       5.129   1.262  -3.225  1.00 10.00    
ATOM    301  CA  LYS    39       6.139   1.650  -4.194  1.00 10.00    
ATOM    302  C   LYS    39       6.348   0.511  -5.192  1.00 10.00    
ATOM    303  O   LYS    39       6.198   0.700  -6.398  1.00 10.00    
ATOM    304  CB  LYS    39       7.421   2.090  -3.486  1.00 10.00    
ATOM    309  N   GLY    40       6.692  -0.651  -4.652  1.00 10.00    
ATOM    310  CA  GLY    40       6.923  -1.822  -5.480  1.00 10.00    
ATOM    311  C   GLY    40       5.617  -2.315  -6.108  1.00 10.00    
ATOM    312  O   GLY    40       5.442  -2.241  -7.323  1.00 10.00    
TER
END
